Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold81
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1151237
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 79344 characters in sequence are not A, C, G, or T
File 8 of 9
Found at i:870321 original size:66 final size:61
Alignment explanation
Indices: 870251--870395 Score: 158
Period size: 59 Copynumber: 2.4 Consensus size: 61
870241 AGTGTACATA
870251 TATATATATATATATTAAATAATTAAAAATTATTAAAATTATACTTATATT--AAAT-AA-TAT
1 TATATATATATATATTAAATAATTAAAAATTATT-AAATTAT--TTATATTAAAAATAAATTAT
* *
870311 TATATTTATAT-TA-AATAATAATTAAAAATTATTAAATTATTTATATTAAAAATAAATTAT
1 TATATATATATATATTA-AATAATTAAAAATTATTAAATTATTTATATTAAAAATAAATTAT
* *
870371 TAAAATTATATTTATATTAAATAAT
1 T-ATA-TATATATATATTAAATAAT
870396 AAAGTAATGC
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
56 7 0.10
58 12 0.17
59 21 0.30
60 14 0.20
61 2 0.03
62 5 0.07
63 8 0.11
64 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (61 bp):
TATATATATATATATTAAATAATTAAAAATTATTAAATTATTTATATTAAAAATAAATTAT
Found at i:870787 original size:35 final size:38
Alignment explanation
Indices: 870706--870783 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
870696 TATATATATT
*
870706 AAATAATTAAAAATTATTAAAATTATATTTATGTTGAA
1 AAATAATTAAAAATTATTAAAATTATATTTATATTGAA
*
870744 TAATAATTAAAAATTATT-AAA-T-TATTTATATT-AA
1 AAATAATTAAAAATTATTAAAATTATATTTATATTGAA
870778 AAATAA
1 AAATAA
870784 ATTATTCTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 7 0.19
35 9 0.24
36 1 0.03
37 3 0.08
38 17 0.46
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (38 bp):
AAATAATTAAAAATTATTAAAATTATATTTATATTGAA
Found at i:871138 original size:17 final size:17
Alignment explanation
Indices: 871116--871151 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
871106 TCATCTTACT
871116 TTTATATAATATTATAA
1 TTTATATAATATTATAA
* *
871133 TTTATATTATATTTTAA
1 TTTATATAATATTATAA
871150 TT
1 TT
871152 ATTTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATATAATATTATAA
Found at i:879321 original size:33 final size:31
Alignment explanation
Indices: 879288--879362 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
879278 TACAAATATA
* * * *
879288 ATAATAATAT-ATTAATATTTTAAATTTTAT
1 ATAAAAATATAATAAATATATTAAAATTTAT
*
879318 ATAAAAATATAATAAATGTATTAAAATTTAT
1 ATAAAAATATAATAAATATATTAAAATTTAT
*
879349 ATAAATTATATAAT
1 ATAAA-AATATAAT
879363 TTAATTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 9 0.24
31 21 0.57
32 7 0.19
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (31 bp):
ATAAAAATATAATAAATATATTAAAATTTAT
Found at i:879322 original size:11 final size:10
Alignment explanation
Indices: 879281--879413 Score: 54
Period size: 10 Copynumber: 13.9 Consensus size: 10
879271 AAAGTAATAC
879281 AAATATA-AT
1 AAATATATAT
879290 -AATAATATAT
1 AAAT-ATATAT
* *
879300 TAATAT-TTT
1 AAATATATAT
*
879309 AAATTTTATAT
1 AAA-TATATAT
*
879320 AAAAATATAAT
1 AAATATAT-AT
*
879331 AAATGTAT-T
1 AAATATATAT
*
879340 AAAATTTATAT
1 -AAATATATAT
879351 AAAT-TATAT
1 AAATATATAT
*
879360 -AATTTA-AT
1 AAATATATAT
* *
879368 TATTAT-TAT
1 AAATATATAT
879377 -AATAT-T-T
1 AAATATATAT
*
879384 AAAAATATAT
1 AAATATATAT
879394 AAATATGATAT
1 AAATAT-ATAT
879405 AAATATATA
1 AAATATATA
879414 AATTTTAAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.01
8 17 0.18
9 21 0.22
10 29 0.31
11 27 0.28
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
AAATATATAT
Found at i:879725 original size:15 final size:15
Alignment explanation
Indices: 879683--879728 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
879673 AATTAATAAT
*
879683 TATAATATTTAAATT
1 TATAATATTTAAATA
*
879698 TATATTTACTTTAAATA
1 TATA-ATA-TTTAAATA
879715 TATAATATTTAAAT
1 TATAATATTTAAAT
879729 CCACATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.42
16 4 0.15
17 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATAATATTTAAATA
Found at i:880358 original size:23 final size:23
Alignment explanation
Indices: 880319--880411 Score: 79
Period size: 23 Copynumber: 4.0 Consensus size: 23
880309 ATAATAAATT
*
880319 TAATAATTTTAAATATGATTAAAAA
1 TAATAA-TTAAAATATGA-TAAAAA
880344 -AATAATTAAAATATGATAAAAA
1 TAATAATTAAAATATGATAAAAA
* *
880366 TAATAA--AAAATATTATCAAGATA
1 TAATAATTAAAATATGAT-AA-AAA
880389 TAA-AATTATAAATAT-ATAAAAA
1 TAATAATTA-AAATATGATAAAAA
880411 T
1 T
880412 TTATATATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
21 9 0.16
22 13 0.22
23 22 0.38
24 8 0.14
25 6 0.10
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (23 bp):
TAATAATTAAAATATGATAAAAA
Found at i:880468 original size:25 final size:25
Alignment explanation
Indices: 880389--880485 Score: 81
Period size: 25 Copynumber: 3.8 Consensus size: 25
880379 TATCAAGATA
* * *
880389 TAAAATTAT-AAATATATAAAAATT
1 TAAATTTATAAAATATATAATATTT
* * *
880413 TATATATTATGAATTAT-TAATATTT
1 TAAAT-TTATAAAATATATAATATTT
880438 TAAAATTTATAAAATATATAATATTT
1 T-AAATTTATAAAATATATAATATTT
*
880464 TAAATTTAATTATAATATATAA
1 TAAATTT-A-TAAAATATATAA
880486 AATTATATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.05
25 26 0.45
26 18 0.31
27 11 0.19
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (25 bp):
TAAATTTATAAAATATATAATATTT
Found at i:880952 original size:22 final size:22
Alignment explanation
Indices: 880924--880967 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
880914 TATAAATATC
880924 ATATATATAATTTATTTAATATGA
1 ATATAT-TAATTT-TTTAATATGA
*
880948 ATATATTTATTTTTTAATAT
1 ATATATTAATTTTTTAATAT
880968 TTTTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATATTAATTTTTTAATATGA
Found at i:881997 original size:14 final size:15
Alignment explanation
Indices: 881977--882021 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
881967 CTAACAATAT
881977 TAAATATAATTACAA
1 TAAATATAATTACAA
*
881992 -AAATATAGTTACAA
1 TAAATATAATTACAA
*
882006 TAAA-ATAATTAAAA
1 TAAATATAATTACAA
882020 TA
1 TA
882022 TGATGTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 23 0.88
15 3 0.12
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (15 bp):
TAAATATAATTACAA
Found at i:884500 original size:2 final size:2
Alignment explanation
Indices: 884493--884533 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
884483 AAAACCATAC
* *
884493 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
884534 CATGGATCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:886482 original size:3 final size:3
Alignment explanation
Indices: 886474--886502 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
886464 TTAAATTTGA
886474 ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
886503 TTTTTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:887718 original size:17 final size:17
Alignment explanation
Indices: 887699--887737 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 17
887689 GACACTGCAC
887699 AAATATATTAATATATCA
1 AAATATA-TAATATATCA
887717 AAATATATAATATATCA
1 AAATATATAATATATCA
887734 AAAT
1 AAAT
887738 TAAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATATAATATATCA
Found at i:887775 original size:33 final size:33
Alignment explanation
Indices: 887725--887816 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
887715 CAAAATATAT
* * *
887725 AATATATCAAA-ATTAAAATAATTATAATTTTAAA
1 AATATAT-AAATA-TAAAATAAATATAATATAAAA
* * *
887759 AATATGTAAATATAAAAAAAATATGATATAAAA
1 AATATATAAATATAAAATAAATATAATATAAAA
*
887792 AATATATAAATATAATATAAATATA
1 AATATATAAATATAAAATAAATATA
887817 TAAATAACAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
33 40 0.85
34 7 0.15
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (33 bp):
AATATATAAATATAAAATAAATATAATATAAAA
Found at i:887780 original size:19 final size:19
Alignment explanation
Indices: 887756--887822 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 19
887746 TTATAATTTT
*
887756 AAAAATATGTAAATAT-AA
1 AAAAATATATAAATATAAA
*
887774 AAAAA-ATAT-GATAT--A
1 AAAAATATATAAATATAAA
*
887789 AAAAATATATAAATATAAT
1 AAAAATATATAAATATAAA
*
887808 ATAAATATATAAATA
1 AAAAATATATAAATA
887823 ACAAATTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 7 0.17
18 5 0.12
19 14 0.35
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAATATATAAATATAAA
Found at i:887809 original size:11 final size:11
Alignment explanation
Indices: 887765--887816 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
887755 TAAAAATATG
*
887765 TAAATATAAAA
1 TAAATATAATA
* *
887776 AAAATATGATA
1 TAAATATAATA
*
887787 TAAA-AAATATA
1 TAAATATA-ATA
887798 TAAATATAATA
1 TAAATATAATA
887809 TAAATATA
1 TAAATATA
887817 TAAATAACAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 1 0.03
11 29 0.91
12 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (11 bp):
TAAATATAATA
Found at i:888128 original size:14 final size:16
Alignment explanation
Indices: 888109--888140 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
888099 ATTATTGATA
888109 TTAAAATT-TA-AATT
1 TTAAAATTATATAATT
888123 TTAAAATTATATAATT
1 TTAAAATTATATAATT
888139 TT
1 TT
888141 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAAAATTATATAATT
Found at i:889296 original size:14 final size:15
Alignment explanation
Indices: 889279--889311 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
889269 GAGATGTAAA
*
889279 TTTTATTT-TTTTAT
1 TTTTATTTATTTAAT
889293 TTTTATTTATTTAAT
1 TTTTATTTATTTAAT
889308 TTTT
1 TTTT
889312 TTTGGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTATTTAAT
Found at i:891226 original size:3 final size:3
Alignment explanation
Indices: 891218--891251 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
891208 ACCTAATTAC
891218 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
891252 CTGAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:891403 original size:22 final size:22
Alignment explanation
Indices: 891376--891423 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
891366 ATTTTAAATA
*
891376 TTAATATATATATATAATTTTT
1 TTAATATATAAATATAATTTTT
* * *
891398 TTAATATTTAAATTTTATTTTT
1 TTAATATATAAATATAATTTTT
891420 TTAA
1 TTAA
891424 AAAATAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTAATATATAAATATAATTTTT
Found at i:891968 original size:11 final size:11
Alignment explanation
Indices: 891952--891985 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
891942 TAAGTTTAAT
*
891952 TATATTTTTTA
1 TATATTTTATA
891963 TATATTTTATA
1 TATATTTTATA
891974 TATATATTTATA
1 TATAT-TTTATA
891986 ATTTGTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTTTATA
Found at i:892249 original size:26 final size:26
Alignment explanation
Indices: 892202--892265 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
892192 AATATAATTA
*
892202 TAAAAAAT-AAAAATGATCTAAACAC
1 TAAAAAATAAAAAATGATCTAAAAAC
* *
892227 TAAAAAATAAAAAATTA-CATAAAAAT
1 TAAAAAATAAAAAATGATC-TAAAAAC
892253 TAAATAAATAAAA
1 TAAA-AAATAAAA
892266 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 9 0.27
26 16 0.48
27 8 0.24
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (26 bp):
TAAAAAATAAAAAATGATCTAAAAAC
Found at i:892265 original size:15 final size:15
Alignment explanation
Indices: 892248--892282 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
892238 AAATTACATA
892248 AAAATT-AAATAAAT
1 AAAATTAAAATAAAT
892262 AAAATTAAAATAAATT
1 AAAATTAAAATAAA-T
892278 AAAAT
1 AAAAT
892283 ATTATATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 7 0.37
16 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTAAAATAAAT
Found at i:892275 original size:19 final size:19
Alignment explanation
Indices: 892229--892276 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
892219 CTAAACACTA
* *
892229 AAAAATAAA-AAATTACAT
1 AAAAATAAATAAATAAAAT
892247 AAAAATTAAATAAATAAAAT
1 AAAAA-TAAATAAATAAAAT
*
892267 TAAAATAAAT
1 AAAAATAAAT
892277 TAAAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 5 0.20
19 9 0.36
20 11 0.44
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATAAATAAATAAAAT
Found at i:892725 original size:20 final size:20
Alignment explanation
Indices: 892697--892753 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
892687 TATAATTTTA
*
892697 TTAAATATTTATTTAATATT
1 TTAAATATTAATTTAATATT
*
892717 TTAATTATTAATTTAATATT
1 TTAAATATTAATTTAATATT
* *
892737 TAAAATTTTAATTTAAT
1 TTAAATATTAATTTAAT
892754 TGATGAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAAATATTAATTTAATATT
Found at i:892794 original size:9 final size:9
Alignment explanation
Indices: 892723--892797 Score: 52
Period size: 9 Copynumber: 8.7 Consensus size: 9
892713 TATTTTAATT
892723 ATTAATTTA
1 ATTAATTTA
892732 A-T-ATTTA
1 ATTAATTTA
892739 A--AATTTTA
1 ATTAA-TTTA
*
892747 ATTTAA-TTG
1 A-TTAATTTA
*
892756 ATGAATTTA
1 ATTAATTTA
*
892765 ATCAATTTA
1 ATTAATTTA
* *
892774 ATTGATTAA
1 ATTAATTTA
892783 ATTAATTTA
1 ATTAATTTA
892792 ATTAAT
1 ATTAAT
892798 ATTTGAATAG
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.14
8 9 0.18
9 33 0.65
11 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (9 bp):
ATTAATTTA
Found at i:892797 original size:22 final size:23
Alignment explanation
Indices: 892743--892794 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
892733 TATTTAAAAT
*
892743 TTTAATTTAATTGATGAATTTAA
1 TTTAATTTAATTGATGAAATTAA
* *
892766 -TCAATTTAATTGATTAAATTAA
1 TTTAATTTAATTGATGAAATTAA
892788 TTTAATT
1 TTTAATT
892795 AATATTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (23 bp):
TTTAATTTAATTGATGAAATTAA
Found at i:893345 original size:32 final size:33
Alignment explanation
Indices: 893307--893386 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 33
893297 AATTATATTT
893307 ATATAAATTTTAATATATTAATA-ATTTATATC
1 ATATAAATTTTAATATATTAATATATTTATATC
* * * *
893339 ATATAAAATTTAAGATATTTATATATTTATATT
1 ATATAAATTTTAATATATTAATATATTTATATC
*
893372 ATATTATATTTTAAT
1 ATA-TAAATTTTAAT
893387 TAATTTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 20 0.51
33 11 0.28
34 8 0.21
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (33 bp):
ATATAAATTTTAATATATTAATATATTTATATC
Found at i:893348 original size:33 final size:34
Alignment explanation
Indices: 893306--893386 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
893296 AAATTATATT
893306 TATATAAATTTTAATATATTAATA-ATTTATATCA
1 TATA-AAATTTTAATATATTAATATATTTATATCA
* * *
893340 TATAAAA-TTTAAGATATTTATATATTTATATTA
1 TATAAAATTTTAATATATTAATATATTTATATCA
* *
893373 TATTATATTTTAAT
1 TATAAAATTTTAAT
893387 TAATTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 13 0.33
33 17 0.44
34 9 0.23
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (34 bp):
TATAAAATTTTAATATATTAATATATTTATATCA
Found at i:895551 original size:23 final size:22
Alignment explanation
Indices: 895522--895593 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 22
895512 ATTTTAAGTC
895522 ATTAAATTTAATATTAATTTTT
1 ATTAAATTTAATATTAATTTTT
*
895544 ATGTAAATCATAAATATTTAA-TTTT
1 AT-TAAAT--TTAATA-TTAATTTTT
*
895569 ATTAAATTATACTATTAAATTTTT
1 ATTAAATT-TAATATT-AATTTTT
895593 A
1 A
895594 ATATTAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
22 5 0.12
23 10 0.25
24 10 0.25
25 11 0.28
26 4 0.10
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (22 bp):
ATTAAATTTAATATTAATTTTT
Found at i:895592 original size:24 final size:23
Alignment explanation
Indices: 895522--895593 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 23
895512 ATTTTAAGTC
895522 ATTAAATT-TAATATTAATTTTT
1 ATTAAATTATAATATTAATTTTT
*
895544 ATGTAAATCATAAATATTTAA-TTTT
1 AT-TAAATTAT-AATA-TTAATTTTT
*
895569 ATTAAATTATACTATTAAATTTTT
1 ATTAAATTATAATATT-AATTTTT
895593 A
1 A
895594 ATATTAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
22 4 0.10
23 10 0.24
24 13 0.32
25 10 0.24
26 4 0.10
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (23 bp):
ATTAAATTATAATATTAATTTTT
Found at i:895805 original size:13 final size:14
Alignment explanation
Indices: 895776--895809 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
895766 ATTTAATTTA
895776 TTAATAATAAAAAT
1 TTAATAATAAAAAT
*
895790 TTAATAAT-ATAAT
1 TTAATAATAAAAAT
895803 TTAATAA
1 TTAATAA
895810 AATTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATAATAAAAAT
Found at i:898885 original size:24 final size:23
Alignment explanation
Indices: 898833--898886 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
898823 ATTTAATTTT
*
898833 AATTATTATTTAAATAATTAAAA
1 AATTTTTATTTAAATAATTAAAA
898856 ATATTTTTATTTAAATTTAATT-AAA
1 A-ATTTTTATTTAAA--TAATTAAAA
898881 AATTTT
1 AATTTT
898887 AATATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 17 0.63
25 4 0.15
26 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTTATTTAAATAATTAAAA
Found at i:898897 original size:24 final size:26
Alignment explanation
Indices: 898847--898898 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
898837 ATTATTTAAA
* *
898847 TAATTAAAAATATTTTTATTTAAATT
1 TAATTAAAAATATTTTAATATAAATT
*
898873 TAATT-AAAA-ATTTTAATATATATT
1 TAATTAAAAATATTTTAATATAAATT
898897 TA
1 TA
898899 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 4 0.17
26 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TAATTAAAAATATTTTAATATAAATT
Found at i:898897 original size:30 final size:29
Alignment explanation
Indices: 898827--898904 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 29
898817 TTTGTAATTT
898827 AATTTTAATTATTATTTAAA--TAATTAAA
1 AATTTTAATTA-TATTTAAATTTAATTAAA
*
898855 AATATT--TT-TATTTAAATTTAATTAAA
1 AATTTTAATTATATTTAAATTTAATTAAA
898881 AATTTTAATATATATTTATAATTT
1 AATTTTAAT-TATATTTA-AATTT
898905 TTTAATATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
24 8 0.20
26 15 0.37
28 6 0.15
29 1 0.02
30 6 0.15
31 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
AATTTTAATTATATTTAAATTTAATTAAA
Found at i:898919 original size:21 final size:20
Alignment explanation
Indices: 898883--898923 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
898873 TAATTAAAAA
898883 TTTTAATATATATTTATAATT
1 TTTTAATATATATTTA-AATT
898904 TTTTAATAT-TATTTTAAATT
1 TTTTAATATATA-TTTAAATT
898924 AAAAACAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAATATATATTTAAATT
Found at i:899631 original size:32 final size:31
Alignment explanation
Indices: 899578--899653 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
899568 TAATTTTATT
* * *
899578 TAAATTTAATTATAAAAAATAAAAATATTAATA
1 TAAAATTAATTTTAAAAAAT-AAAATA-AAATA
*
899611 TAAAA-TAATTTTAAATAATAAAATAAAATA
1 TAAAATTAATTTTAAAAAATAAAATAAAATA
899641 TAAAATTAATTTT
1 TAAAATTAATTTT
899654 GATTAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 9 0.24
31 13 0.34
32 12 0.32
33 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAATTAATTTTAAAAAATAAAATAAAATA
Found at i:899704 original size:14 final size:14
Alignment explanation
Indices: 899685--899723 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
899675 TGAATTACGA
*
899685 TTTAATTTAGTAAG
1 TTTAATTTAATAAG
* *
899699 TTTAATTTAATTAT
1 TTTAATTTAATAAG
899713 TTTAATTTAAT
1 TTTAATTTAAT
899724 GATGGTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (14 bp):
TTTAATTTAATAAG
Found at i:905662 original size:6 final size:6
Alignment explanation
Indices: 905653--905677 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
905643 AATATTATAA
905653 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
905678 ATTAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:906514 original size:17 final size:17
Alignment explanation
Indices: 906472--906518 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
906462 TCAAAAATTA
906472 AAATATAATA-AAAAAT
1 AAATATAATATAAAAAT
*
906488 AACATA-AATATAAAGAT
1 AA-ATATAATATAAAAAT
906505 AAATATAATATAAA
1 AAATATAATATAAA
906519 TACGTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATATAATATAAAAAT
Found at i:906609 original size:2 final size:2
Alignment explanation
Indices: 906602--906632 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
906592 CAAAACACTT
906602 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
906633 TAATTCATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:909783 original size:15 final size:14
Alignment explanation
Indices: 909737--909784 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 14
909727 TTTAGGAACA
*
909737 AAAAATTATCTT-T
1 AAAAATTATATTCT
909750 AAAAATTATATTC-
1 AAAAATTATATTCT
909763 AAAAATTATATTTCT
1 AAAAATTATA-TTCT
909778 AAAAATT
1 AAAAATT
909785 TTTGGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 21 0.68
14 3 0.10
15 7 0.23
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATTATATTCT
Found at i:909979 original size:14 final size:14
Alignment explanation
Indices: 909969--909995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
909959 TAATAAAATT
909969 ATTAAATTAAAAAG
1 ATTAAATTAAAAAG
909983 ATTAAATTAAAAA
1 ATTAAATTAAAAA
909996 AAATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
ATTAAATTAAAAAG
Found at i:912081 original size:21 final size:20
Alignment explanation
Indices: 912039--912081 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
912029 TATTAAATAA
*
912039 ATTTTATATAATATTTATAT
1 ATTTTATATAATATTTAAAT
912059 ATTTTATAATTAA-ATTTAAAT
1 ATTTTAT-A-TAATATTTAAAT
912080 AT
1 AT
912082 AAATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 10 0.50
22 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTATATAATATTTAAAT
Found at i:912637 original size:17 final size:15
Alignment explanation
Indices: 912607--912643 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
912597 AACGTATTAT
912607 AAATATTAAAATTTA
1 AAATATTAAAATTTA
912622 AAATATTTATAAATTTA
1 AAATA-TTA-AAATTTA
912639 AAATA
1 AAATA
912644 AATAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 3 0.15
17 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATTAAAATTTA
Found at i:912650 original size:24 final size:25
Alignment explanation
Indices: 912603--912651 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
912593 ACAAAACGTA
*
912603 TTATAAATATTAAAATTTAAAATAT
1 TTATAAATATTAAAATTAAAAATAT
912628 TTATAAAT-TTAAAA-TAAATAATAT
1 TTATAAATATTAAAATTAAA-AATAT
912652 ATTTTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 11 0.50
25 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATAAATATTAAAATTAAAAATAT
Found at i:912687 original size:21 final size:22
Alignment explanation
Indices: 912663--912706 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
912653 TTTTTTATGT
*
912663 ATAAAATATTATAAT-TTAAAA
1 ATAAAAAATTATAATATTAAAA
*
912684 ATAAAAAATTATTATATTAAAA
1 ATAAAAAATTATAATATTAAAA
912706 A
1 A
912707 ATAATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAAAAATTATAATATTAAAA
Found at i:912691 original size:23 final size:23
Alignment explanation
Indices: 912665--912710 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
912655 TTTTATGTAT
*
912665 AAAA-TATTATAATTTAAAAATAA
1 AAAATTATTAT-ATTAAAAAATAA
912688 AAAATTATTATATTAAAAAATAA
1 AAAATTATTATATTAAAAAATAA
912711 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATTATTATATTAAAAAATAA
Found at i:912704 original size:16 final size:16
Alignment explanation
Indices: 912685--912715 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
912675 AATTTAAAAA
*
912685 TAAAAAATTATTATAT
1 TAAAAAATAATTATAT
912701 TAAAAAATAATTATA
1 TAAAAAATAATTATA
912716 AAAATTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAAAATAATTATAT
Found at i:913033 original size:18 final size:18
Alignment explanation
Indices: 912992--913057 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 18
912982 ATATAGTTTT
912992 ATTTTTAT-TTTTATATT-
1 ATTTTTATATTTTA-ATTA
*
913009 A-TATTATATTTTAATTA
1 ATTTTTATATTTTAATTA
*
913026 ATTTTTATA-TATAATATA
1 ATTTTTATATTTTAAT-TA
913044 ATTATATTATATTT
1 ATT-T-TTATATTT
913058 AAAATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
16 8 0.21
17 12 0.32
18 11 0.29
19 1 0.03
20 5 0.13
21 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTATATTTTAATTA
Found at i:914240 original size:17 final size:18
Alignment explanation
Indices: 914218--914251 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
914208 TTGATATCAT
*
914218 AATTAA-TATTTTATTAC
1 AATTAATTATTATATTAC
914235 AATTAATTATTATATTA
1 AATTAATTATTATATTA
914252 TTTATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTAATTATTATATTAC
Found at i:914789 original size:22 final size:21
Alignment explanation
Indices: 914710--914800 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 21
914700 TATTTTTATT
*
914710 TAATATATTAA-AATTATAAA
1 TAATATATTAATTATTATAAA
**
914730 -AATAT-TT-ATTATTATATT
1 TAATATATTAATTATTATAAA
*
914748 TAATATAAT-ATTATTATAAA
1 TAATATATTAATTATTATAAA
*
914768 TAATATATTAATTAATTTTAAA
1 TAATATATTAATT-ATTATAAA
* *
914790 AAATATTTTAA
1 TAATATATTAA
914801 AGATATTTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
17 1 0.02
18 8 0.14
19 10 0.18
20 18 0.32
21 3 0.05
22 16 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATATTAATTATTATAAA
Found at i:915493 original size:21 final size:21
Alignment explanation
Indices: 915452--915493 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
915442 ATGATGGATT
*
915452 AAAAATTTAAAGAAACCTATA
1 AAAAATTTAAAGAAACATATA
*
915473 AAAAATTTTAAATAAA-ATATA
1 AAAAA-TTTAAAGAAACATATA
915494 TAAATGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATTTAAAGAAACATATA
Found at i:915548 original size:2 final size:2
Alignment explanation
Indices: 915541--915581 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
915531 GTTAGCCATC
* *
915541 TA TA TA TA TA TA TA TA CA TA TA TA TA CA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
915582 TAAATCCTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:916210 original size:41 final size:41
Alignment explanation
Indices: 916157--916240 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
916147 ATAAAAATTG
916157 ACTATGATCATCAACCACAATCTTGAAGAAATAAGCCAAAA
1 ACTATGATCATCAACCACAATCTTGAAGAAATAAGCCAAAA
916198 ACTATGATCATCAACCACAATCTTGAAGAAATAAGCCAAAA
1 ACTATGATCATCAACCACAATCTTGAAGAAATAAGCCAAAA
916239 AC
1 AC
916241 AAATTTAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.49, C:0.23, G:0.10, T:0.19
Consensus pattern (41 bp):
ACTATGATCATCAACCACAATCTTGAAGAAATAAGCCAAAA
Found at i:917227 original size:14 final size:14
Alignment explanation
Indices: 917203--917380 Score: 64
Period size: 14 Copynumber: 13.1 Consensus size: 14
917193 TTTTTTCATA
917203 ATATGAAATATAATT
1 ATAT-AAATATAATT
917218 ATATAAATATAATAT
1 ATATAAATATAAT-T
917233 ATATAAA-ATAA-T
1 ATATAAATATAATT
* *
917245 ATAATACATAAAACTT
1 AT-ATAAATATAA-TT
* *
917261 A-A-AATTTATAA-A
1 ATATAA-ATATAATT
917273 ATATAAATTATTAA-T
1 ATATAAA-TA-TAATT
*
917288 ATTTTAAA-AT--TT
1 A-TATAAATATAATT
*
917300 ATATATATAT-ATAT
1 ATATAAATATAAT-T
917314 ATATAAA-AT-ATT
1 ATATAAATATAATT
*
917326 -T-TAGATATAATT
1 ATATAAATATAATT
*
917338 ATAATAAA-ATAAAT
1 AT-ATAAATATAATT
*
917352 ATATAAATATAAAT
1 ATATAAATATAATT
*
917366 AAATAAATA-AATT
1 ATATAAATATAATT
917379 AT
1 AT
917381 TGAGGATTTC
Statistics
Matches: 124, Mismatches: 18, Indels: 44
0.67 0.10 0.24
Matches are distributed among these distances:
10 3 0.02
11 7 0.06
12 12 0.10
13 22 0.18
14 54 0.44
15 19 0.15
16 7 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (14 bp):
ATATAAATATAATT
Found at i:917279 original size:16 final size:16
Alignment explanation
Indices: 917203--917324 Score: 65
Period size: 16 Copynumber: 7.7 Consensus size: 16
917193 TTTTTTCATA
* *
917203 ATATGAAATAT-AATT
1 ATATAAAATATAAAAT
*
917218 ATAT-AAATATAATAT
1 ATATAAAATATAAAAT
*
917233 ATATAAAATAATATAAT
1 ATATAAAAT-ATAAAAT
*
917250 ACATAAAACT-TAAAAT
1 ATATAAAA-TATAAAAT
* *
917266 TTATAAAATATAAATT
1 ATATAAAATATAAAAT
* *
917282 AT-TAATATTTTAAAAT
1 ATATAA-AATATAAAAT
* * *
917298 TTAT-ATATATATATAT
1 ATATAAAATATA-AAAT
917314 ATATAAAATAT
1 ATATAAAATAT
917325 TTTAGATATA
Statistics
Matches: 78, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
14 6 0.08
15 17 0.22
16 36 0.46
17 18 0.23
18 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (16 bp):
ATATAAAATATAAAAT
Found at i:917355 original size:22 final size:22
Alignment explanation
Indices: 917330--917374 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
917320 AATATTTTAG
*
917330 ATATAATTAT-AATAAAATAAAT
1 ATATAAATATAAAT-AAATAAAT
917352 ATATAAATATAAATAAATAAAT
1 ATATAAATATAAATAAATAAAT
917374 A
1 A
917375 AATTATTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATAAATATAAATAAATAAAT
Found at i:917367 original size:18 final size:17
Alignment explanation
Indices: 917340--917377 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
917330 ATATAATTAT
*
917340 AATAAAATAAATATATA
1 AATAAAATAAATAAATA
917357 AATATAAATAAATAAATA
1 AATA-AAATAAATAAATA
917375 AAT
1 AAT
917378 TATTGAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAATAAATAAATA
Found at i:918002 original size:16 final size:18
Alignment explanation
Indices: 917977--918019 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
917967 TTTAACTTTT
*
917977 AATTTGTATTT-AAA-TA
1 AATTTTTATTTCAAATTA
917993 AATTTTTATTTCAAATTA
1 AATTTTTATTTCAAATTA
*
918011 AATATTTAT
1 AATTTTTAT
918020 ATATATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 3 0.13
18 10 0.43
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
AATTTTTATTTCAAATTA
Found at i:918866 original size:2 final size:2
Alignment explanation
Indices: 918859--918892 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
918849 TGTATCATGC
918859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
918893 TGAATCTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:919358 original size:20 final size:20
Alignment explanation
Indices: 919315--919355 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
919305 ATAATTTATT
*
919315 ATATTTTAATTATATTTAAA
1 ATATTTTAATTATATATAAA
919335 ATATTTTATATTTATATATAA
1 ATATTTTA-A-TTATATATAA
919356 TATAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTTTAATTATATATAAA
Found at i:919362 original size:25 final size:24
Alignment explanation
Indices: 919324--919391 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
919314 TATATTTTAA
*
919324 TTATATT-TAAAATATTTTAT-AT
1 TTATATTATATAATATTTTATAAT
*
919346 TTATATATAATATAATATATTAATAAT
1 TTATAT-T-ATATAATAT-TTTATAAT
919373 TTATATTATATAA-ATTTTA
1 TTATATTATATAATATTTTA
919392 AGATATTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 6 0.16
23 4 0.11
24 2 0.05
25 13 0.34
26 5 0.13
27 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATATTATATAATATTTTATAAT
Found at i:919651 original size:17 final size:17
Alignment explanation
Indices: 919629--919663 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
919619 CAACGATAAA
919629 TATTAAATTTTA-AAAAT
1 TATT-AATTTTATAAAAT
919646 TATTAATTTTATAAAAT
1 TATTAATTTTATAAAAT
919663 T
1 T
919664 TGCTTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTAATTTTATAAAAT
Found at i:920188 original size:64 final size:64
Alignment explanation
Indices: 920076--920200 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 64
920066 TACTACTTAA
* * * *
920076 TTTAATGTAATTTATACTTCTATGTATAAAAAAAGCTTGAAATTTAGGAGATTAA-AAAATTAG
1 TTTAATGTAATTTACACTTCTATGTAAAAAAAAAACTTGAAATTTAGGAGACTAAGAAAATTAG
*
920139 TTTAATGTAATTTACACTTTTAT-TAAAAAATAAAAACTTGAAATTTAGGAGACTAAGAAAAT
1 TTTAATGTAATTTACACTTCTATGT-AAAAA-AAAAACTTGAAATTTAGGAGACTAAGAAAAT
920201 AAAGAATTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 1 0.02
63 25 0.46
64 23 0.43
65 5 0.09
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (64 bp):
TTTAATGTAATTTACACTTCTATGTAAAAAAAAAACTTGAAATTTAGGAGACTAAGAAAATTAG
Found at i:920711 original size:20 final size:20
Alignment explanation
Indices: 920687--920728 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
920677 CATGATTCAC
920687 CTTTTTTTT-TTC-TTTTCTT
1 CTTTTTTTTCTTCATTTT-TT
920706 CTTTTTTTTCTTCATTTTTT
1 CTTTTTTTTCTTCATTTTTT
920726 CTT
1 CTT
920729 CTATTCCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 8 0.38
21 4 0.19
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (20 bp):
CTTTTTTTTCTTCATTTTTT
Found at i:921608 original size:16 final size:14
Alignment explanation
Indices: 921587--921643 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 14
921577 TGAGTTTATA
921587 AAAATTTATAAATATT
1 AAAATTTA-AAAT-TT
921603 AAAATTTAAAATTTT
1 AAAATTTAAAA-TTT
921618 ATAAATATTAAAATTT
1 A-AAAT-TTAAAATTT
921634 AAAATTTAAA
1 AAAATTTAAA
921644 TATGATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.13
15 10 0.26
16 17 0.45
17 6 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTAAAATTT
Found at i:921611 original size:7 final size:7
Alignment explanation
Indices: 921587--921643 Score: 69
Period size: 7 Copynumber: 7.4 Consensus size: 7
921577 TGAGTTTATA
921587 AAAATTT
1 AAAATTT
921594 ATAAATATT
1 A-AAAT-TT
921603 AAAATTT
1 AAAATTT
921610 AAAATTTT
1 AAAA-TTT
921618 ATAAATATT
1 A-AAAT-TT
921627 AAAATTT
1 AAAATTT
921634 AAAATTT
1 AAAATTT
921641 AAA
1 AAA
921644 TATGATAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
7 19 0.42
8 17 0.38
9 9 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAAATTT
Found at i:921612 original size:24 final size:24
Alignment explanation
Indices: 921585--921641 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
921575 TATGAGTTTA
921585 TAAAAATTTATAAATATTAAAATT
1 TAAAAATTTATAAATATTAAAATT
*
921609 TAAAATTTTATAAATATTAAAATT
1 TAAAAATTTATAAATATTAAAATT
921633 T-AAAATTTA
1 TAAAAATTTA
921642 AATATGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 7 0.23
24 24 0.77
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAAAATTTATAAATATTAAAATT
Found at i:929954 original size:10 final size:9
Alignment explanation
Indices: 929938--929962 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
929928 ATCAAAGGGG
929938 TAAAAAAAA
1 TAAAAAAAA
929947 TAAAAAAAA
1 TAAAAAAAA
929956 TAAAAAA
1 TAAAAAA
929963 GAAAATAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:930626 original size:17 final size:17
Alignment explanation
Indices: 930590--930647 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 17
930580 AAAAAATTTG
930590 AATTAAATATTTTAATATT
1 AATTAAATA-TTTAA-ATT
930609 AATTAAAT-TTCTAAATT
1 AATTAAATATT-TAAATT
*
930626 ATTTAAATATTTAAATTT
1 AATTAAATATTTAAA-TT
930644 AATT
1 AATT
930648 TATTTAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 16 0.47
18 10 0.29
19 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTAAATATTTAAATT
Found at i:930628 original size:49 final size:52
Alignment explanation
Indices: 930535--930656 Score: 121
Period size: 49 Copynumber: 2.4 Consensus size: 52
930525 AAGTTTATTT
* * *
930535 ATTTAATAGTAAATAAATTTAAT-TT--TTAAATTTTACTAATTTATTAAAAA
1 ATTTAA-ATTAAATATATTTAATATTAATTAAATTTTACTAAATTATTAAAAA
* * *
930585 ATTTGAATTAAATAT-TTTAATATTAATTAAA-TTT-CTAAATTATTTAAAT
1 ATTTAAATTAAATATATTTAATATTAATTAAATTTTACTAAATTATTAAAAA
* *
930634 ATTTAAATTTAATTTATTTAATA
1 ATTTAAATTAAATATATTTAATA
930657 ATTTAAATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
48 6 0.10
49 33 0.56
50 15 0.25
51 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (52 bp):
ATTTAAATTAAATATATTTAATATTAATTAAATTTTACTAAATTATTAAAAA
Found at i:930648 original size:19 final size:19
Alignment explanation
Indices: 930583--930673 Score: 66
Period size: 19 Copynumber: 4.7 Consensus size: 19
930573 ATTTATTAAA
930583 AAATTTGAA-TTAAATATTT
1 AAATTT-AATTTAAATATTT
*
930602 TAATATTAA-TTAAAT-TTCT
1 AAAT-TTAATTTAAATATT-T
930621 AAA-TT-ATTTAAATATTT
1 AAATTTAATTTAAATATTT
930638 AAATTTAATTTATTTAATAATTT
1 AAATTTAATTTA---AAT-ATTT
*
930661 AAATTTATTTTAA
1 AAATTTAATTTAA
930674 TAGTTATTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
16 1 0.02
17 12 0.20
18 6 0.10
19 19 0.32
20 3 0.05
22 3 0.05
23 15 0.25
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (19 bp):
AAATTTAATTTAAATATTT
Found at i:930656 original size:22 final size:24
Alignment explanation
Indices: 930571--930672 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 24
930561 TAAATTTTAC
* *
930571 TAATTTA-TTAAAAAATTTGAATT
1 TAATTTATTTAAATAATTTAAATT
* *
930594 AAATAT-TTTAATATTAA-TTAAATTT
1 TAATTTATTTAA-A-TAATTTAAA-TT
*
930619 CTAAATTATTTAAAT-ATTTAAATT
1 -TAATTTATTTAAATAATTTAAATT
930643 TAATTTATTT-AATAATTTAAATT
1 TAATTTATTTAAATAATTTAAATT
*
930666 TATTTTA
1 TAATTTA
930673 ATAGTTATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
22 3 0.05
23 32 0.52
24 8 0.13
25 10 0.16
26 4 0.06
27 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (24 bp):
TAATTTATTTAAATAATTTAAATT
Found at i:931233 original size:31 final size:31
Alignment explanation
Indices: 931184--931269 Score: 104
Period size: 30 Copynumber: 2.7 Consensus size: 31
931174 TATTTTAATT
931184 TTAAATTAATCATGTTTAATATTTAAATTA-A
1 TTAAATTAATCAT-TTTAATATTTAAATTATA
*
931215 TTAAATTCAATCATTTTAA-ATTTAAATTATT
1 TTAAATT-AATCATTTTAATATTTAAATTATA
* *
931246 TTAAATTAATTATTTAAATTATTT
1 TTAAATTAATCATTTTAA-TATTT
931270 TAAGTTTACG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
30 19 0.40
31 19 0.40
32 10 0.21
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (31 bp):
TTAAATTAATCATTTTAATATTTAAATTATA
Found at i:931235 original size:15 final size:14
Alignment explanation
Indices: 931181--931266 Score: 61
Period size: 16 Copynumber: 5.8 Consensus size: 14
931171 AGTTATTTTA
931181 ATTTTAAATTAATC
1 ATTTTAAATTAATC
931195 ATGTTTAATATTTAA--
1 AT-TTTAA-A-TTAATC
931210 ATTAATTAAATTCAATC
1 ATT--TTAAATT-AATC
*
931227 ATTTTAAATTTAAATT
1 ATTTTAAA-TT-AATC
*
931243 ATTTTAAATTAATT
1 ATTTTAAATTAATC
931257 A-TTTAAATTA
1 ATTTTAAATTA
931267 TTTTAAGTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
13 9 0.15
14 10 0.16
15 17 0.28
16 18 0.30
17 7 0.11
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (14 bp):
ATTTTAAATTAATC
Found at i:931240 original size:30 final size:30
Alignment explanation
Indices: 931184--931265 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
931174 TATTTTAATT
931184 TTAAATTAATCATGTTTAATATTTAAATTA-A
1 TTAAATTAATCAT-TTTAA-ATTTAAATTATA
*
931215 TTAAATTCAATCATTTTAAATTTAAATTATT
1 TTAAATT-AATCATTTTAAATTTAAATTATA
*
931246 TTAAATTAATTA-TTTAAATT
1 TTAAATTAATCATTTTAAATT
931266 ATTTTAAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 8 0.17
30 14 0.30
31 19 0.40
32 6 0.13
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (30 bp):
TTAAATTAATCATTTTAAATTTAAATTATA
Found at i:931621 original size:24 final size:25
Alignment explanation
Indices: 931580--931630 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
931570 AAAATTATAA
*
931580 AATAATGATTTTATTATTATATCTT
1 AATAATGATTTTAATATTATATCTT
* *
931605 AATAATTA-TTTAATATTTTATCTT
1 AATAATGATTTTAATATTATATCTT
931629 AA
1 AA
931631 ACTTAGTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (25 bp):
AATAATGATTTTAATATTATATCTT
Found at i:936614 original size:28 final size:27
Alignment explanation
Indices: 936539--936614 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 27
936529 AAATTTATAT
*
936539 AATTTATATAA-TTATTTTAAAAAATAA
1 AATTTATA-AATTTATTTTTAAAAATAA
* * * **
936566 AACTTAATATATTCAAATTTAAAAATAA
1 AA-TTTATAAATTTATTTTTAAAAATAA
936594 ATATTTATAAATTTATTTTTA
1 A-ATTTATAAATTTATTTTTA
936615 TTATATTTTT
Statistics
Matches: 35, Mismatches: 11, Indels: 5
0.69 0.22 0.10
Matches are distributed among these distances:
27 3 0.09
28 31 0.89
29 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTTATAAATTTATTTTTAAAAATAA
Found at i:937552 original size:20 final size:20
Alignment explanation
Indices: 937508--937564 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 20
937498 AGATTATTTA
937508 ATTAAA-AAG-AATTTAAAT
1 ATTAAATAAGTAATTTAAAT
* *
937526 A-TCAATAAGTAATTTTAAT
1 ATTAAATAAGTAATTTAAAT
937545 ATTAAATAAGT-A-TTAAAT
1 ATTAAATAAGTAATTTAAAT
937563 AT
1 AT
937565 AATAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.09
18 11 0.34
19 10 0.31
20 8 0.25
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTAAATAAGTAATTTAAAT
Found at i:939151 original size:2 final size:2
Alignment explanation
Indices: 939146--939185 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
939136 CACATATTAC
939146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
939186 TCATTTGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:940014 original size:57 final size:57
Alignment explanation
Indices: 939920--940043 Score: 205
Period size: 57 Copynumber: 2.1 Consensus size: 57
939910 GGGATGGATT
*
939920 ATTGATTGGTTCCTTTTTTTGAACAACATGGATCCAAGATATAGAAATGGTGAAATGAA
1 ATTGAATGGTTCCTTTTTTTG-A-AACATGGATCCAAGATATAGAAATGGTGAAATGAA
939979 ATTGAATGGTTCCTTTTTTTTG-AACATGGATCCAAGATATAGAAATGGTGAAATGAA
1 ATTGAATGGTTCC-TTTTTTTGAAACATGGATCCAAGATATAGAAATGGTGAAATGAA
940036 ATTGAATG
1 ATTGAATG
940044 TAAATTTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 43 0.68
59 12 0.19
60 8 0.13
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (57 bp):
ATTGAATGGTTCCTTTTTTTGAAACATGGATCCAAGATATAGAAATGGTGAAATGAA
Found at i:941569 original size:60 final size:60
Alignment explanation
Indices: 941505--941626 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
941495 TATATGAAAT
941505 TTTAGCTCGAATTTGATTGACTTTCATTTTTAGAATTCAAGCTCAATTAAAAAAATTAAG
1 TTTAGCTCGAATTTGATTGACTTTCATTTTTAGAATTCAAGCTCAATTAAAAAAATTAAG
941565 TTTAGCTCGAATTTGATTGACTTTCATTTTTAGAATTCAAGCTCAATTAAAAAAATTAAG
1 TTTAGCTCGAATTTGATTGACTTTCATTTTTAGAATTCAAGCTCAATTAAAAAAATTAAG
941625 TT
1 TT
941627 GCTTGAGTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (60 bp):
TTTAGCTCGAATTTGATTGACTTTCATTTTTAGAATTCAAGCTCAATTAAAAAAATTAAG
Found at i:948895 original size:25 final size:24
Alignment explanation
Indices: 948852--948917 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
948842 AACGTTTTTT
948852 ATATATTTATA-AAAT-TATA-TG
1 ATATATTTATATAAATATATATTG
948873 ATATATTTATATTTAAATATATATTG
1 ATATATTTATA--TAAATATATATTG
*
948899 A-ATATATATATCAAATATA
1 ATATATTTATAT-AAATATA
948918 AATATTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 11 0.29
23 1 0.03
24 11 0.29
25 12 0.32
26 3 0.08
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (24 bp):
ATATATTTATATAAATATATATTG
Found at i:956308 original size:27 final size:27
Alignment explanation
Indices: 956278--956423 Score: 78
Period size: 27 Copynumber: 5.6 Consensus size: 27
956268 ATATATTTTA
*
956278 TTATATTATAATTATATTTAATATAAT
1 TTATATTATAATTATATTTAATAAAAT
*
956305 TTATA-TATAA--AT-TGTAATAAATAT
1 TTATATTATAATTATATTTAATAAA-AT
* * *
956329 TTATTTTAT-TTTATATATTAA-ATATAT
1 TTATATTATAATTATAT-TTAATA-AAAT
** *
956356 TTATAAAATATTTATAATTTAA-AAAAT
1 TTATATTATAATTAT-ATTTAATAAAAT
*
956383 TT-TATT-TATATTATATTTTATAAAAT
1 TTATATTATA-ATTATATTTAATAAAAT
*
956409 TCTAT-TTAAAATTAT
1 T-TATATTATAATTAT
956424 CAAATGATAC
Statistics
Matches: 90, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
23 7 0.08
24 8 0.09
25 10 0.11
26 19 0.21
27 28 0.31
28 16 0.18
29 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
TTATATTATAATTATATTTAATAAAAT
Found at i:956371 original size:17 final size:16
Alignment explanation
Indices: 956351--956392 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
956341 ATATATTAAA
956351 TATATTTATAAAATATT
1 TATATTTATAAAA-ATT
956368 TATAATTTA-AAAAATT
1 TAT-ATTTATAAAAATT
956384 T-TATTTATA
1 TATATTTATA
956393 TTATATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.22
15 2 0.09
16 4 0.17
17 7 0.30
18 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATTTATAAAAATT
Found at i:956375 original size:18 final size:17
Alignment explanation
Indices: 956354--956387 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
956344 TATTAAATAT
*
956354 ATTTATAAAATATTTATA
1 ATTTAAAAAAT-TTTATA
956372 ATTTAAAAAATTTTAT
1 ATTTAAAAAATTTTAT
956388 TTATATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAAAAAATTTTATA
Found at i:956396 original size:26 final size:26
Alignment explanation
Indices: 956367--956416 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
956357 TATAAAATAT
*
956367 TTATAATTTAAAAAATTTTATTTATA
1 TTATAATTTAAAAAATTCTATTTATA
* *
956393 TTATATTTTATAAAATTCTATTTA
1 TTATAATTTAAAAAATTCTATTTA
956417 AAATTATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATAATTTAAAAAATTCTATTTATA
Found at i:960810 original size:17 final size:18
Alignment explanation
Indices: 960782--960815 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
960772 GATTAAAAAT
*
960782 AATTATAAAATATATAAA
1 AATTATAAAATAAATAAA
960800 AATTA-AAAATAAATAA
1 AATTATAAAATAAATAA
960816 TTTTAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATTATAAAATAAATAAA
Found at i:961014 original size:12 final size:12
Alignment explanation
Indices: 960978--961029 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
960968 TTTTTCATGT
*
960978 AAAATTTTATAA
1 AAAATTTTATTA
*
960990 AAAATTAAATATTA
1 AAAATT--TTATTA
*
961004 AAAATTTTATTT
1 AAAATTTTATTA
*
961016 AAAATTTAATTA
1 AAAATTTTATTA
961028 AA
1 AA
961030 TTTAATTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 22 0.69
14 10 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AAAATTTTATTA
Found at i:961028 original size:11 final size:11
Alignment explanation
Indices: 961004--961057 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
960994 TTAAATATTA
*
961004 AAAATTTTATTT
1 AAAA-TTTAATT
961016 AAAATTTAATT
1 AAAATTTAATT
961027 -AAATTTAATTTT
1 AAAATTTAA--TT
961039 AAAA--TAATT
1 AAAATTTAATT
961048 AAAATTTAAT
1 AAAATTTAAT
961058 ATAACTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
9 6 0.17
10 8 0.22
11 13 0.36
12 6 0.17
13 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTTAATT
Found at i:961037 original size:22 final size:21
Alignment explanation
Indices: 960996--961057 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
960986 ATAAAAAATT
*
960996 AAAT-ATTAAAAATTTTATTTA
1 AAATAATT-AAAATTTAATTTA
961017 AAATTTAATT-AAATTTAATTTTA
1 AAA--TAATTAAAATTTAA-TTTA
961040 AAATAATTAAAATTTAAT
1 AAATAATTAAAATTTAAT
961058 ATAACTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
21 9 0.26
22 15 0.43
23 8 0.23
24 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATAATTAAAATTTAATTTA
Found at i:961365 original size:20 final size:20
Alignment explanation
Indices: 961340--961380 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
961330 TTATTTTAAA
961340 TATATTTTATTAAATATATT
1 TATATTTTATTAAATATATT
961360 TATATTTTATTAAATATATT
1 TATATTTTATTAAATATATT
961380 T
1 T
961381 TAAATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTTTATTAAATATATT
Found at i:961382 original size:14 final size:15
Alignment explanation
Indices: 961329--961365 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
961319 CGATCGGTTT
*
961329 TTTATTTTAAATATA
1 TTTATATTAAATATA
961344 TTT-TATTAAATATA
1 TTTATATTAAATATA
961358 TTTATATT
1 TTTATATT
961366 TTATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATATTAAATATA
Found at i:961495 original size:17 final size:17
Alignment explanation
Indices: 961451--961527 Score: 54
Period size: 17 Copynumber: 4.7 Consensus size: 17
961441 TTAAATTAAC
* *
961451 AAATTAAATTGATATTTT
1 AAATTAAATT-AAAATTT
*
961469 AAATT-GATTAAAATTT
1 AAATTAAATTAAAATTT
*
961485 AAATTAAATT--AA-TA
1 AAATTAAATTAAAATTT
**
961499 AAATTAAATTAATGTTT
1 AAATTAAATTAAAATTT
*
961516 TAATTAAATTAA
1 AAATTAAATTAA
961528 TTTTATTCGA
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
14 11 0.24
15 2 0.04
16 10 0.22
17 18 0.39
18 5 0.11
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (17 bp):
AAATTAAATTAAAATTT
Found at i:961504 original size:14 final size:14
Alignment explanation
Indices: 961485--961511 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
961475 ATTAAAATTT
961485 AAATTAAATTAATA
1 AAATTAAATTAATA
961499 AAATTAAATTAAT
1 AAATTAAATTAAT
961512 GTTTTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTAAATTAATA
Found at i:961671 original size:2 final size:2
Alignment explanation
Indices: 961664--961702 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
961654 GTTTTAATAC
961664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
961703 AAGATTCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:961764 original size:20 final size:20
Alignment explanation
Indices: 961714--961766 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
961704 AGATTCTTAC
*
961714 TAAAAATAAATATTATAATAT
1 TAAAAATAAAT-TTATAAAAT
* **
961735 TATATTTAAATTTATAAAAT
1 TAAAAATAAATTTATAAAAT
961755 TAAAAATAAATT
1 TAAAAATAAATT
961767 AACAAGTAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAATAAATTTATAAAAT
Found at i:961851 original size:19 final size:19
Alignment explanation
Indices: 961827--961890 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
961817 ATACGTTTAT
961827 AAAATATAAATATAACATA
1 AAAATATAAATATAACATA
**
961846 AAAATAATTAAA-ATATGATA
1 AAAAT-A-TAAATATAACATA
961866 CAATAA-AT-AATATAACATA
1 -AA-AATATAAATATAACATA
961885 AAAATA
1 AAAATA
961891 ATATGAACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 12 0.34
20 8 0.23
21 6 0.17
22 2 0.06
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATATAAATATAACATA
Found at i:962389 original size:13 final size:14
Alignment explanation
Indices: 962366--962398 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
962356 AAAATTTTAA
962366 TATATTAATATATT
1 TATATTAATATATT
962380 TATA-TAATATATT
1 TATATTAATATATT
*
962393 TTTATT
1 TATATT
962399 CTTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATTAATATATT
Found at i:962871 original size:22 final size:22
Alignment explanation
Indices: 962846--962913 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
962836 AAAAATATTT
*
962846 TTATTTAAAT-TTAATTATAAAA
1 TTATATAAATATTAA-TATAAAA
962868 TTATATAAATATTAATATAAAAA
1 TTATATAAATATTAATAT-AAAA
* *
962891 TAATATTATAATATTATTATAAA
1 TTATA-TA-AATATTAATATAAA
962914 TAATAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 12 0.31
23 12 0.31
24 5 0.13
25 10 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATATAAATATTAATATAAAA
Found at i:964694 original size:17 final size:18
Alignment explanation
Indices: 964662--964697 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
964652 AATTTGATAG
964662 TAATTAAAAATAATTTTA
1 TAATTAAAAATAATTTTA
*
964680 TAATTAAAAATATTTTTA
1 TAATTAAAAATAATTTTA
964698 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTAAAAATAATTTTA
Found at i:968730 original size:7 final size:7
Alignment explanation
Indices: 968715--968774 Score: 56
Period size: 7 Copynumber: 9.1 Consensus size: 7
968705 AAGTTCTAAT
*
968715 TCTCTTC
1 TCTCCTC
968722 TCTCCTC
1 TCTCCTC
968729 TCT-CTC
1 TCTCCTC
968735 TCTCC-C
1 TCTCCTC
*
968741 -CGCC-C
1 TCTCCTC
*
968746 GCTCCTC
1 TCTCCTC
*
968753 TCTCATC
1 TCTCCTC
968760 TCTCCTC
1 TCTCCTC
968767 TCTCCTC
1 TCTCCTC
968774 T
1 T
968775 TTATGAGTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 4 0.09
6 10 0.23
7 30 0.68
ACGTcount: A:0.02, C:0.55, G:0.03, T:0.40
Consensus pattern (7 bp):
TCTCCTC
Found at i:969540 original size:26 final size:27
Alignment explanation
Indices: 969494--969549 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
969484 TTTGAATAGT
969494 AAATAAATAATAAAAATATTTAAATTTA
1 AAATAAAT-ATAAAAATATTTAAATTTA
969522 AAATAAAT-TAAATAA-ATTTAAATTTA
1 AAATAAATATAAA-AATATTTAAATTTA
969548 AA
1 AA
969550 TATTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 17 0.63
27 2 0.07
28 8 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
AAATAAATATAAAAATATTTAAATTTA
Found at i:969557 original size:20 final size:19
Alignment explanation
Indices: 969507--969558 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
969497 TAAATAATAA
969507 AAATATTTAAATTTAAAAT
1 AAATATTTAAATTTAAAAT
** *
969526 AAATTAAATAAATTTAAATTT
1 AAA-TATTTAAATTTAAA-AT
969547 AAATATTTAAAT
1 AAATATTTAAAT
969559 AATTATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.12
20 19 0.73
21 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATATTTAAATTTAAAAT
Found at i:969672 original size:27 final size:29
Alignment explanation
Indices: 969632--969690 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
969622 TAGGGTAACG
*
969632 TTAATATTAAATTT-GATAATTTATTA-A
1 TTAATATTAAATTTAAATAATTTATTATA
*
969659 TTAATA-TAATATTTAAATATTTTATTATA
1 TTAATATTAA-ATTTAAATAATTTATTATA
969688 TTA
1 TTA
969691 TAATTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 10 0.37
28 10 0.37
29 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TTAATATTAAATTTAAATAATTTATTATA
Found at i:969688 original size:23 final size:22
Alignment explanation
Indices: 969662--969715 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
969652 TTATTAATTA
969662 ATATAATATTTAAATATTTTATT
1 ATATAATATTTAAAT-TTTTATT
* * *
969685 ATATTATAATTATATTTTTATT
1 ATATAATATTTAAATTTTTATT
*
969707 A-GTAATATT
1 ATATAATATT
969716 AATATAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 5 0.20
22 8 0.32
23 12 0.48
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATAATATTTAAATTTTTATT
Found at i:969706 original size:50 final size:50
Alignment explanation
Indices: 969651--969787 Score: 126
Period size: 47 Copynumber: 2.8 Consensus size: 50
969641 AATTTGATAA
969651 TTTATTAATTAATATAATATTTAAATATTTTATTATATTATAATTA-TATT
1 TTTATTAATTAATATAATATTTAAATATTTTATTATATTATAATTATTA-T
* *
969701 TTTATT-AGTAATATTAATA--TAAAT-TTATA-TATATTAATAATTATTAT
1 TTTATTAATTAATA-TAATATTTAAATATTTTATTATATT-ATAATTATTAT
* * * * *
969748 TATATTAATT-TTAAAATATTTATACATTTATATTATATTA
1 TTTATTAATTAATATAATATTTAAATATTT-TATTATATTA
969788 ACTTAACTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
46 10 0.14
47 19 0.28
48 12 0.17
49 8 0.12
50 14 0.20
51 6 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (50 bp):
TTTATTAATTAATATAATATTTAAATATTTTATTATATTATAATTATTAT
Found at i:969740 original size:18 final size:18
Alignment explanation
Indices: 969719--969756 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
969709 TAATATTAAT
969719 ATAAAT-TTATATATATTA
1 ATAAATATTAT-TATATTA
*
969737 ATAATTATTATTATATTA
1 ATAAATATTATTATATTA
969755 AT
1 AT
969757 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAAATATTATTATATTA
Found at i:973785 original size:3 final size:3
Alignment explanation
Indices: 973777--973808 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
973767 GTATCAGTTG
973777 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
973809 TTGTGTATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:980592 original size:20 final size:19
Alignment explanation
Indices: 980567--980611 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
980557 ATTGGATAAA
*
980567 AAAATAAAGATATAATTTTT
1 AAAATAAAGA-AAAATTTTT
* *
980587 AAAATACATAAAAATTTTT
1 AAAATAAAGAAAAATTTTT
980606 AAAATA
1 AAAATA
980612 TTAAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAATAAAGAAAAATTTTT
Found at i:982514 original size:7 final size:8
Alignment explanation
Indices: 982498--982533 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
982488 CACGTTTTCA
982498 TTTTATTT
1 TTTTATTT
982506 TTTTATTT
1 TTTTATTT
982514 TTTT-TATT
1 TTTTAT-TT
982522 TTTTATTT
1 TTTTATTT
982530 TTTT
1 TTTT
982534 GCTTTGCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 1 0.04
8 24 0.92
9 1 0.04
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:982523 original size:16 final size:17
Alignment explanation
Indices: 982498--982533 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
982488 CACGTTTTCA
982498 TTTTATTTTTTTATTTT
1 TTTTATTTTTTTATTTT
982515 TTTTA-TTTTTTATTTT
1 TTTTATTTTTTTATTTT
982531 TTT
1 TTT
982534 GCTTTGCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTATTTTTTTATTTT
Found at i:983216 original size:36 final size:36
Alignment explanation
Indices: 983132--983220 Score: 119
Period size: 35 Copynumber: 2.5 Consensus size: 36
983122 TCTTCTTTCT
983132 TTTTATTTATTCCATGCCCATCATTCCATACCTAGCA
1 TTTT-TTTATTCCATGCCCATCATTCCATACCTAGCA
* * *
983169 -TTTTTTATTCCATGCTCATCATTCCATGCCT-TCAA
1 TTTTTTTATTCCATGCCCATCATTCCATACCTAGC-A
983204 TTTTTTTATTCCATGCC
1 TTTTTTTATTCCATGCC
983221 TTTATTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 1 0.02
35 27 0.59
36 18 0.39
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46
Consensus pattern (36 bp):
TTTTTTTATTCCATGCCCATCATTCCATACCTAGCA
Found at i:983229 original size:21 final size:22
Alignment explanation
Indices: 983189--983234 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
983179 CATGCTCATC
983189 ATTCCATGCCTTCAATTTTTTT
1 ATTCCATGCCTTCAATTTTTTT
*
983211 ATTCCATGCCTT-TATTTTTTT
1 ATTCCATGCCTTCAATTTTTTT
983232 ATT
1 ATT
983235 TTATACTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.17, C:0.20, G:0.04, T:0.59
Consensus pattern (22 bp):
ATTCCATGCCTTCAATTTTTTT
Found at i:983276 original size:34 final size:35
Alignment explanation
Indices: 983211--983277 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
983201 CAATTTTTTT
*
983211 ATTCCATGCCTTTATTTTTTTATTTTATACTCATC
1 ATTCCATGCCTTTATTTTTTTATATTATACTCATC
*
983246 ATTCCATGCCTTGT-TTTTTTT-TATTGTACTCA
1 ATTCCATGCCTT-TATTTTTTTATATTATACTCA
983278 CGTTGCCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 9 0.31
35 19 0.66
36 1 0.03
ACGTcount: A:0.18, C:0.19, G:0.06, T:0.57
Consensus pattern (35 bp):
ATTCCATGCCTTTATTTTTTTATATTATACTCATC
Found at i:983339 original size:17 final size:16
Alignment explanation
Indices: 983306--983385 Score: 56
Period size: 18 Copynumber: 4.7 Consensus size: 16
983296 GGCCATTTCA
983306 TTTTT-TTTTTGAATT
1 TTTTTATTTTTGAATT
983321 TTTTTATTTCTTG-ATT
1 TTTTTATTT-TTGAATT
*
983337 TTTATTATTATATTGAATA
1 TTT-TTATT-T-TTGAATT
* *
983356 TTATTATTTTTAATAATT
1 TTTTTATTTTT--GAATT
983374 TTTTTGATTTTT
1 TTTTT-ATTTTT
983386 TTATTTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.10
16 11 0.22
17 9 0.18
18 16 0.31
19 10 0.20
ACGTcount: A:0.23, C:0.01, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTGAATT
Found at i:990335 original size:28 final size:28
Alignment explanation
Indices: 990292--990356 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
990282 ACCATAGTTG
*
990292 ATAAAAAGGCTTTTTGTCTTTGGTTCGA
1 ATAAAAAGACTTTTTGTCTTTGGTTCGA
*
990320 ATCAAAAGACTTTTTGTCTTTGGTTCGA
1 ATAAAAAGACTTTTTGTCTTTGGTTCGA
990348 ATAAAAAGA
1 ATAAAAAGA
990357 AGTGCACCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (28 bp):
ATAAAAAGACTTTTTGTCTTTGGTTCGA
Found at i:991150 original size:57 final size:57
Alignment explanation
Indices: 991062--991177 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
991052 AAAAGGATGT
*
991062 TAAAATCATTAAATAACGGTCATAGTATCATGTTGCGGTTGCTATTTGAATCTTTGG
1 TAAAATCATTAAATAACGGTCATAGCATCATGTTGCGGTTGCTATTTGAATCTTTGG
991119 TAAAATCATTAAATAACGGTCATAGCATCATGTTGCGGTTGCTATTTGAATCTTTGG
1 TAAAATCATTAAATAACGGTCATAGCATCATGTTGCGGTTGCTATTTGAATCTTTGG
991176 TA
1 TA
991178 TGAACATTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (57 bp):
TAAAATCATTAAATAACGGTCATAGCATCATGTTGCGGTTGCTATTTGAATCTTTGG
Found at i:991732 original size:16 final size:16
Alignment explanation
Indices: 991703--991748 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
991693 TAGTTTTAAA
*
991703 TCATTTCGAGTTCGGAT
1 TCATTTTGAGTTCGG-T
*
991720 T-ATTTTGATTTCGGT
1 TCATTTTGAGTTCGGT
991735 TCATTTTGAGTTCG
1 TCATTTTGAGTTCG
991749 AGTCAATTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 2 0.08
16 22 0.88
17 1 0.04
ACGTcount: A:0.15, C:0.13, G:0.22, T:0.50
Consensus pattern (16 bp):
TCATTTTGAGTTCGGT
Done.